NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0307507_10001541

Scaffold Ga0307507_10001541


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001541 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)51370
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (78.57%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002220Metagenome581Y
F008074Metagenome339Y
F027375Metagenome194Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100015414F002220AGGMYLLKSNSVIKLSFSFSFAIRFAFTSLSSLRAKNWSSPKIIVLLVCMLMILNGVPIVVIRKQGLNVKVVIKSFSLWCLL
Ga0307507_100015415F008074AGAAGLEYWLAAKIYNVNDNTEVEVIVIFKGELKSARGLLVYLVVIVVLYKMLNCLNLNFMAYLLKNPKQLMNRWVAKTMV
Ga0307507_100015417F027375N/AMVPLLDTIPLSVLNRSYCSKNRSASSATIIVIKIVKYPKNFVYLLTIIKIALVTSLVLILVGGKPIIKSIINSNMGPYRIGSTSNLLYRQCLGIYTLWHILYFNI
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